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Data Quality, Performance, and Uncertainty in Taxonomic Identification for Biological Assessments
J. N. Am. Benthol. Soc., 2008, 27(4):906–919 Ó 2008 by The North American Benthological Society DOI: 10.1899/07-175.1 Published online: 28 October 2008 Data quality, performance, and uncertainty in taxonomic identification for biological assessments 1 2 James B. Stribling AND Kristen L. Pavlik Tetra Tech, Inc., 400 Red Brook Blvd., Suite 200, Owings Mills, Maryland 21117-5159 USA Susan M. Holdsworth3 Office of Wetlands, Oceans, and Watersheds, US Environmental Protection Agency, 1200 Pennsylvania Ave., NW, Mail Code 4503T, Washington, DC 20460 USA Erik W. Leppo4 Tetra Tech, Inc., 400 Red Brook Blvd., Suite 200, Owings Mills, Maryland 21117-5159 USA Abstract. Taxonomic identifications are central to biological assessment; thus, documenting and reporting uncertainty associated with identifications is critical. The presumption that comparable results would be obtained, regardless of which or how many taxonomists were used to identify samples, lies at the core of any assessment. As part of a national survey of streams, 741 benthic macroinvertebrate samples were collected throughout the eastern USA, subsampled in laboratories to ;500 organisms/sample, and sent to taxonomists for identification and enumeration. Primary identifications were done by 25 taxonomists in 8 laboratories. For each laboratory, ;10% of the samples were randomly selected for quality control (QC) reidentification and sent to an independent taxonomist in a separate laboratory (total n ¼ 74), and the 2 sets of results were compared directly. The results of the sample-based comparisons were summarized as % taxonomic disagreement (PTD) and % difference in enumeration (PDE). Across the set of QC samples, mean values of PTD and PDE were ;21 and 2.6%, respectively. -
CHIRONOMUS Newsletter on Chironomidae Research
CHIRONOMUS Newsletter on Chironomidae Research No. 25 ISSN 0172-1941 (printed) 1891-5426 (online) November 2012 CONTENTS Editorial: Inventories - What are they good for? 3 Dr. William P. Coffman: Celebrating 50 years of research on Chironomidae 4 Dear Sepp! 9 Dr. Marta Margreiter-Kownacka 14 Current Research Sharma, S. et al. Chironomidae (Diptera) in the Himalayan Lakes - A study of sub- fossil assemblages in the sediments of two high altitude lakes from Nepal 15 Krosch, M. et al. Non-destructive DNA extraction from Chironomidae, including fragile pupal exuviae, extends analysable collections and enhances vouchering 22 Martin, J. Kiefferulus barbitarsis (Kieffer, 1911) and Kiefferulus tainanus (Kieffer, 1912) are distinct species 28 Short Communications An easy to make and simple designed rearing apparatus for Chironomidae 33 Some proposed emendations to larval morphology terminology 35 Chironomids in Quaternary permafrost deposits in the Siberian Arctic 39 New books, resources and announcements 43 Finnish Chironomidae 47 Chironomini indet. (Paratendipes?) from La Selva Biological Station, Costa Rica. Photo by Carlos de la Rosa. CHIRONOMUS Newsletter on Chironomidae Research Editors Torbjørn EKREM, Museum of Natural History and Archaeology, Norwegian University of Science and Technology, NO-7491 Trondheim, Norway Peter H. LANGTON, 16, Irish Society Court, Coleraine, Co. Londonderry, Northern Ireland BT52 1GX The CHIRONOMUS Newsletter on Chironomidae Research is devoted to all aspects of chironomid research and aims to be an updated news bulletin for the Chironomidae research community. The newsletter is published yearly in October/November, is open access, and can be downloaded free from this website: http:// www.ntnu.no/ojs/index.php/chironomus. Publisher is the Museum of Natural History and Archaeology at the Norwegian University of Science and Technology in Trondheim, Norway. -
Marine Midge Telmatogeton Japonicus Tokunaga (Diptera: Chironomidae) Exploiting Brackish Water in Finland
Aquatic Invasions (2009) Volume 4, Issue 2: 405-408 DOI 10.3391/ai.2009.4.2.20 © 2009 The Author(s) Journal compilation © 2009 REABIC (http://www.reabic.net) This is an Open Access article Short communication Marine midge Telmatogeton japonicus Tokunaga (Diptera: Chironomidae) exploiting brackish water in Finland Janne Raunio1*, Lauri Paasivirta2 and Yngve Brodin3 1Janne Raunio, Water and Environment Association for the River Kymi, Tapiontie 2 C, FIN-45160 Kouvola, Finland E-mail: [email protected] 2Lauri Paasivirta, Ruuhikoskenkatu 17 B 5, FIN-24240 Salo, Finland E-mail: [email protected] 3Yngve Brodin, Swedish Museum of Natural History, P.O. Box 50007, SE-10405 Stockholm, Sweden E-mail: [email protected] *Corresponding author Received 20 March 2009; accepted in revised form 26 May 2009; published online 3 June 2009 Abstract Pupal exuviae of marine intertidal midge Telmatogeton japonicus Tokunaga (Diptera: Chironomidae) were found in September 2008 from the Gulf of Finland, Baltic Sea. Previous records of the species in the Baltic Sea were from Sweden, Denmark, Germany and Poland. Telmatogeton japonicus is an alien species introduced to Europe from the Pacific Ocean. It probably uses shipping as the vector, since in north-western Europe it has first been detected near large seaports. This was also the case in the Gulf of Finland. Our findings suggests that the species’ distribution extends further northeast in the Baltic Sea than understood before, and that the species is able to establish viable populations into fresh-brackish (salinity < 4 ‰) coastal habitats. Key words: Telmatogeton japonicus, Chironomidae, pupal exuviae, Gulf of Finland Benthic macroinvertabrate communities in the 2005; Raunio 2008) to assess chironomid littoral and sub-littoral zones in the Gulf of community composition in three areas in the Finland (Baltic Sea) are rather poorly known, as Gulf of Finland (Figure 1). -
Checklist of the Family Chironomidae (Diptera) of Finland
A peer-reviewed open-access journal ZooKeys 441: 63–90 (2014)Checklist of the family Chironomidae (Diptera) of Finland 63 doi: 10.3897/zookeys.441.7461 CHECKLIST www.zookeys.org Launched to accelerate biodiversity research Checklist of the family Chironomidae (Diptera) of Finland Lauri Paasivirta1 1 Ruuhikoskenkatu 17 B 5, FI-24240 Salo, Finland Corresponding author: Lauri Paasivirta ([email protected]) Academic editor: J. Kahanpää | Received 10 March 2014 | Accepted 26 August 2014 | Published 19 September 2014 http://zoobank.org/F3343ED1-AE2C-43B4-9BA1-029B5EC32763 Citation: Paasivirta L (2014) Checklist of the family Chironomidae (Diptera) of Finland. In: Kahanpää J, Salmela J (Eds) Checklist of the Diptera of Finland. ZooKeys 441: 63–90. doi: 10.3897/zookeys.441.7461 Abstract A checklist of the family Chironomidae (Diptera) recorded from Finland is presented. Keywords Finland, Chironomidae, species list, biodiversity, faunistics Introduction There are supposedly at least 15 000 species of chironomid midges in the world (Armitage et al. 1995, but see Pape et al. 2011) making it the largest family among the aquatic insects. The European chironomid fauna consists of 1262 species (Sæther and Spies 2013). In Finland, 780 species can be found, of which 37 are still undescribed (Paasivirta 2012). The species checklist written by B. Lindeberg on 23.10.1979 (Hackman 1980) included 409 chironomid species. Twenty of those species have been removed from the checklist due to various reasons. The total number of species increased in the 1980s to 570, mainly due to the identification work by me and J. Tuiskunen (Bergman and Jansson 1983, Tuiskunen and Lindeberg 1986). -
Table of Contents 2
Southwest Association of Freshwater Invertebrate Taxonomists (SAFIT) List of Freshwater Macroinvertebrate Taxa from California and Adjacent States including Standard Taxonomic Effort Levels 1 March 2011 Austin Brady Richards and D. Christopher Rogers Table of Contents 2 1.0 Introduction 4 1.1 Acknowledgments 5 2.0 Standard Taxonomic Effort 5 2.1 Rules for Developing a Standard Taxonomic Effort Document 5 2.2 Changes from the Previous Version 6 2.3 The SAFIT Standard Taxonomic List 6 3.0 Methods and Materials 7 3.1 Habitat information 7 3.2 Geographic Scope 7 3.3 Abbreviations used in the STE List 8 3.4 Life Stage Terminology 8 4.0 Rare, Threatened and Endangered Species 8 5.0 Literature Cited 9 Appendix I. The SAFIT Standard Taxonomic Effort List 10 Phylum Silicea 11 Phylum Cnidaria 12 Phylum Platyhelminthes 14 Phylum Nemertea 15 Phylum Nemata 16 Phylum Nematomorpha 17 Phylum Entoprocta 18 Phylum Ectoprocta 19 Phylum Mollusca 20 Phylum Annelida 32 Class Hirudinea Class Branchiobdella Class Polychaeta Class Oligochaeta Phylum Arthropoda Subphylum Chelicerata, Subclass Acari 35 Subphylum Crustacea 47 Subphylum Hexapoda Class Collembola 69 Class Insecta Order Ephemeroptera 71 Order Odonata 95 Order Plecoptera 112 Order Hemiptera 126 Order Megaloptera 139 Order Neuroptera 141 Order Trichoptera 143 Order Lepidoptera 165 2 Order Coleoptera 167 Order Diptera 219 3 1.0 Introduction The Southwest Association of Freshwater Invertebrate Taxonomists (SAFIT) is charged through its charter to develop standardized levels for the taxonomic identification of aquatic macroinvertebrates in support of bioassessment. This document defines the standard levels of taxonomic effort (STE) for bioassessment data compatible with the Surface Water Ambient Monitoring Program (SWAMP) bioassessment protocols (Ode, 2007) or similar procedures. -
Nearctic Chironomidae
Agriculture I*l Canada A catalog of Nearctic Chironomidae A catalog of Catalogue des Nearctic Chironomidae Chironomidae delardgion ndarctique D.R. Oliver and M.E. Dillon D.R. Oliver et M.E. Dillon Biosystematics Research Centre Centre de recherches biosyst6matiques Ottawa, Ontario Ottawa (Ontario) K1A 0C6 K1A 0C6 and et P.S. Cranston P.S. Cranston Commonwealth Scientific and Organisation de la recherche Industrial Research scientifique et industrielle du Organization, Entomology Commonwealth, Entomologie Canberra ACT 2601 Canberra ACT 2601 Australia Australie Research Branch Direction g6n6rale de la recherche Agriculture Canada Agriculture Canada Publication 185718 Publication 185718 1 990 1 990 @Minister of Supply and Services Canada 1990 oMinistre des Approvisionnement et Services Canada 1990 Available in Canada through En vente au Canada par I'entremise de nos Authorized Bookstore Agents agents libraires agr66s et autres and other bmkstores libraires. or by mail from ou par la poste au Canadian Govemnent Publishing Centre Centre d'6dition du gouvemement du Supply and Servies Canada Canada Oltawa, Canada K1A 0S9 Approvisionnements et Seryies Canada Ottawa (Canada) K1A 0S9 Cat No. A43-I85'7ll99O N" de cat A43-785117990 ISBN 0-660-55839-4 ISBN 0-660-55839-4 Price subject to change without notic€ Prix sujet i changemenl sans pr6avis Canadian Cataloguing in Publication Data Donn6ee de catalogage avant publication (Canada) Oliver, D.R. Oliver, D.R. A mtalog of Nearctic Chironomidae A atalog of Nearctic Chironomidae (Publication ; 1857/8) (Publiation ; 18578) Text in English and French- Texle en anglais et en frangais. Includes bibliographiel referenes. Comprend des r6f6rences bibliogr. Issued by Research Branch, Agriculture Canada. -
DNA Barcoding
Full-time PhD studies of Ecology and Environmental Protection Piotr Gadawski Species diversity and origin of non-biting midges (Chironomidae) from a geologically young lake PhD Thesis and its old spring system Performed in Department of Invertebrate Zoology and Hydrobiology in Institute of Ecology and Environmental Protection Różnorodność gatunkowa i pochodzenie fauny Supervisor: ochotkowatych (Chironomidae) z geologicznie Prof. dr hab. Michał Grabowski młodego jeziora i starego systemu źródlisk Auxiliary supervisor: Dr. Matteo Montagna, Assoc. Prof. Łódź, 2020 Łódź, 2020 Table of contents Acknowledgements ..........................................................................................................3 Summary ...........................................................................................................................4 General introduction .........................................................................................................6 Skadar Lake ...................................................................................................................7 Chironomidae ..............................................................................................................10 Species concept and integrative taxonomy .................................................................12 DNA barcoding ...........................................................................................................14 Chapter I. First insight into the diversity and ecology of non-biting midges (Diptera: Chironomidae) -
Studies on Ecology of Marine Chironomids in Southwestern Japan INTRODUCTION MATERIALS and METHODS
生物圏科学 Biosphere Sci. 54:13-19 (2015) Studies on ecology of marine chironomids in southwestern Japan 1)* 1) 2) Koichiro KAWAI , Hidetoshi SAITO and Katsuo SUGIMARU 1)Laboratory of Aquatic Ecology, Graduate School of Biosphere Science, Hiroshima University, 1-4-4 Kagamiyama, Higashi-Hiroshima 739-8528, Japan 2) Research Dept., Fumakira Co. Ltd., 1-11-1, Umehara, Hatsukaichi-shi, Hiroshima 739-0494, Japan Abstract Ecological studies were conducted on marine chironomids in south-western Japan. A total of 20 species was collected. For vertical distribution, only a few species was distributed only at high or middle intertidal zone while many species were distributed only at low zone. For substrate preference, some species were collected only on rocks or in mud while many species were collected only in seaweeds. For geographical distribution, a few species was collected only in the southwestern islands or in the oceanic coast in the Japanese main islands. In contrast, some species were collected in the Seto Inland Sea and the oceanic coast in the main islands, in the oceanic coast in the main islands and the southwestern islands, or in all areas. For seasonal emergence, Dicrotendipes enteromorphae was collected only in summer and autumn, and Semiocladius endocladiae was collected in all seasons. Other species were collected only in autumn and winter, or only in winter and spring. These results suggest that many chironomid species with a variety of lifestyles dwell in intertidal zones and have some important roles in the ecosystems. Key Words: sessile organisms, chironomid, distribution, intertidal zone, seaweed INTRODUCTION Chironomids (Diptera: Chironomidae) are one of the widely distributed insects on the earth (Nihon yusurika kenkyu-kai, 2010). -
The Role of Chironomidae in Separating Naturally Poor from Disturbed Communities
From taxonomy to multiple-trait bioassessment: the role of Chironomidae in separating naturally poor from disturbed communities Da taxonomia à abordagem baseada nos multiatributos dos taxa: função dos Chironomidae na separação de comunidades naturalmente pobres das antropogenicamente perturbadas Sónia Raquel Quinás Serra Tese de doutoramento em Biociências, ramo de especialização Ecologia de Bacias Hidrográficas, orientada pela Doutora Maria João Feio, pelo Doutor Manuel Augusto Simões Graça e pelo Doutor Sylvain Dolédec e apresentada ao Departamento de Ciências da Vida da Faculdade de Ciências e Tecnologia da Universidade de Coimbra. Agosto de 2016 This thesis was made under the Agreement for joint supervision of doctoral studies leading to the award of a dual doctoral degree. This agreement was celebrated between partner institutions from two countries (Portugal and France) and the Ph.D. student. The two Universities involved were: And This thesis was supported by: Portuguese Foundation for Science and Technology (FCT), financing program: ‘Programa Operacional Potencial Humano/Fundo Social Europeu’ (POPH/FSE): through an individual scholarship for the PhD student with reference: SFRH/BD/80188/2011 And MARE-UC – Marine and Environmental Sciences Centre. University of Coimbra, Portugal: CNRS, UMR 5023 - LEHNA, Laboratoire d'Ecologie des Hydrosystèmes Naturels et Anthropisés, University Lyon1, France: Aos meus amados pais, sempre os melhores e mais dedicados amigos Table of contents: ABSTRACT ..................................................................................................................... -
Microsoft Outlook
Joey Steil From: Leslie Jordan <[email protected]> Sent: Tuesday, September 25, 2018 1:13 PM To: Angela Ruberto Subject: Potential Environmental Beneficial Users of Surface Water in Your GSA Attachments: Paso Basin - County of San Luis Obispo Groundwater Sustainabilit_detail.xls; Field_Descriptions.xlsx; Freshwater_Species_Data_Sources.xls; FW_Paper_PLOSONE.pdf; FW_Paper_PLOSONE_S1.pdf; FW_Paper_PLOSONE_S2.pdf; FW_Paper_PLOSONE_S3.pdf; FW_Paper_PLOSONE_S4.pdf CALIFORNIA WATER | GROUNDWATER To: GSAs We write to provide a starting point for addressing environmental beneficial users of surface water, as required under the Sustainable Groundwater Management Act (SGMA). SGMA seeks to achieve sustainability, which is defined as the absence of several undesirable results, including “depletions of interconnected surface water that have significant and unreasonable adverse impacts on beneficial users of surface water” (Water Code §10721). The Nature Conservancy (TNC) is a science-based, nonprofit organization with a mission to conserve the lands and waters on which all life depends. Like humans, plants and animals often rely on groundwater for survival, which is why TNC helped develop, and is now helping to implement, SGMA. Earlier this year, we launched the Groundwater Resource Hub, which is an online resource intended to help make it easier and cheaper to address environmental requirements under SGMA. As a first step in addressing when depletions might have an adverse impact, The Nature Conservancy recommends identifying the beneficial users of surface water, which include environmental users. This is a critical step, as it is impossible to define “significant and unreasonable adverse impacts” without knowing what is being impacted. To make this easy, we are providing this letter and the accompanying documents as the best available science on the freshwater species within the boundary of your groundwater sustainability agency (GSA). -
Final Report IV
Final Report Development of alternative approaches for monitoring the effects of the mosquito control agent Bti on ecosystems of the Dalälven catchment Brendan McKie & Willem Goedkoop Department of Aquatic Sciences & Assessment Swedish University of Agricultural Sciences Uppsala Campus Other contributing staff members: Oded Levanoni, Jakob Nissel, David Angeler, Richard Johnson. 1 TABLE OF CONTENTS (A) Utökad sammanfattning / Expanded Summary Utökad svensk sammanfattning, inklusiv ett preliminärt förslag till övervakning av Bti- effekter.............................................................................................................................................................. 4 I) Litteratursammanställning – Sammanfattning av resultat........................................................................ 5 II) Biologisk övervakning av Bti-effekter i andra länder................................................................................... 6 III) Utvärdering av tidigare övervakning 2002-2007:........................................................................................ 6 IV) Statistisk analys av befintliga data...................................................................................................................... 7 V) GIS-analys av potentiella referensområden i Nedre Dalälven................................................................... 8 VI) Preliminärt förslag till övervakning av Bti-effekter..................................................................................... 9 Expanded -
MOLECULAR IDENTIFICATION of CHIRONOMID SPECIES BASED on ITS-1 and ITS-2 REGIONS of Rdna
MOLECULAR IDENTIFICATION OF CHIRONOMID SPECIES BASED ON ITS-1 AND ITS-2 REGIONS OF rDNA A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science By MONITA SHARMA B.Sc. Maharani College, Jaipur, India 2001 2007 Wright State University WRIGHT STATE UNIVERSITY SCHOOL OF GRADUATE STUDIES May 15, 2007 I HEREBY RECOMMEND THAT THE THESIS PREPARED UNDER MY SUPERVISION BY Monita Sharma ENTITLED Molecular Identification of Chironomid species based on ITS-1 and ITS-2 regions of rDNA BE ACCEPTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF Master of Science. ___________________________ Dan E. Krane, Ph.D. ___________________________ David Goldstein, Ph.D. Department Chair, Committee on Biological Sciences Final Examination ____________________________ Dan E. Krane, Ph.D. ____________________________ Stephanie A. Smith, Ph.D. ____________________________ Yvonne M. Vadeboncoeur, Ph.D. ____________________________ Michele Wheatly, Ph.D. Dean, College of Science and Mathematics ____________________________ Joseph F. Thomas, Jr., Ph.D. Dean, School of Graduate Studies ABSTRACT Sharma, Monita. M.S., Department of Biological Sciences, Wright State University, 2007. Molecular Characterization of Chironomid species and their use as bio-indicators. Of all major aquatic invertebrate groups, members of family Chironomidae are most abundant and show a wide range of habitat preferences. The importance of correct identification of Chironomids has been realized in many bioassessment studies mainly because of their worldwide distribution, substrate specificities and predictable responses to various pollutants in the water sources. This study establishes that the sequence data from the Intergenic Spacer Regions (ITS) of ribosomal DNA could be used as molecular markers to distinguish between different Chironomidae species and also to identify them.